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The complex between TCR A6 and human Class I MHC HLA-A2 with the modified HTLV-1 TAX (Y5(3,4-difluoroPhenylalanine)) peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QSE PDB ENTRY 1QSE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 297 TRIS 0.1 M, PEG4000 15%, MgCl2 0.2M, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.71 54.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 224.45 α = 90 b = 48.537 β = 90.61 c = 93.794 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD CUSTOM-MADE 2006-08-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97934 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.87 20 99.6 0.065 26.9 3.6 25184 25084 1 1 82
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.87 2.97 96.9 0.41 2.2 3.2 2399
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1QSE 2.8 20 1 25316 24962 1277 98.57 0.22351 0.22041 0.2178 0.27787 0.2723 RANDOM, 5.1% of the data set 63.751
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -6.13 -1.94 12.24 -6.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.116 r_dihedral_angle_3_deg 21.858 r_dihedral_angle_4_deg 19.518 r_dihedral_angle_1_deg 7.771 r_angle_refined_deg 1.749 r_mcangle_it 1.594 r_scangle_it 1.145 r_mcbond_it 0.963 r_scbond_it 0.755 r_nbtor_refined 0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.116 r_dihedral_angle_3_deg 21.858 r_dihedral_angle_4_deg 19.518 r_dihedral_angle_1_deg 7.771 r_angle_refined_deg 1.749 r_mcangle_it 1.594 r_scangle_it 1.145 r_mcbond_it 0.963 r_scbond_it 0.755 r_nbtor_refined 0.33 r_xyhbond_nbd_refined 0.22 r_symmetry_hbond_refined 0.216 r_nbd_refined 0.129 r_symmetry_vdw_refined 0.124 r_chiral_restr 0.122 r_bond_refined_d 0.015 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6642 Nucleic Acid Atoms Solvent Atoms 27 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing